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Items: 12

1.

Differential regulation of RNA polymerase III genes during liver regeneration.

Yeganeh M, Praz V, Carmeli C, Villeneuve D, Rib L, Guex N, Herr W, Delorenzi M, Hernandez N; CycliX consortium .

Nucleic Acids Res. 2018 Dec 29. doi: 10.1093/nar/gky1282. [Epub ahead of print]

PMID:
30597109
2.

Cycles of gene expression and genome response during mammalian tissue regeneration.

Rib L, Villeneuve D, Minocha S, Praz V, Hernandez N, Guex N, Herr W; CycliX Consortium.

Epigenetics Chromatin. 2018 Sep 12;11(1):52. doi: 10.1186/s13072-018-0222-0.

3.

Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding-fasting response and the circadian clock.

Mange F, Praz V, Migliavacca E, Willis IM, Schütz F, Hernandez N; CycliX Consortium.

Genome Res. 2017 Jun;27(6):973-984. doi: 10.1101/gr.217521.116. Epub 2017 Mar 24.

4.

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases.

SIB Swiss Institute of Bioinformatics Members.

Nucleic Acids Res. 2016 Jan 4;44(D1):D27-37. doi: 10.1093/nar/gkv1310. Epub 2015 Nov 28.

5.

Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization.

Bonhoure N, Bounova G, Bernasconi D, Praz V, Lammers F, Canella D, Willis IM, Herr W, Hernandez N, Delorenzi M; CycliX Consortium.

Genome Res. 2014 Jul;24(7):1157-68. doi: 10.1101/gr.168260.113. Epub 2014 Apr 7.

6.

Genome-wide analysis of SREBP1 activity around the clock reveals its combined dependency on nutrient and circadian signals.

Gilardi F, Migliavacca E, Naldi A, Baruchet M, Canella D, Le Martelot G, Guex N, Desvergne B; CycliX Consortium.

PLoS Genet. 2014 Mar 6;10(3):e1004155. doi: 10.1371/journal.pgen.1004155. eCollection 2014 Mar.

7.

Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.

Le Martelot G, Canella D, Symul L, Migliavacca E, Gilardi F, Liechti R, Martin O, Harshman K, Delorenzi M, Desvergne B, Herr W, Deplancke B, Schibler U, Rougemont J, Guex N, Hernandez N, Naef F; CycliX Consortium.

PLoS Biol. 2012;10(11):e1001442. doi: 10.1371/journal.pbio.1001442. Epub 2012 Nov 27.

8.

A multiplicity of factors contributes to selective RNA polymerase III occupancy of a subset of RNA polymerase III genes in mouse liver.

Canella D, Bernasconi D, Gilardi F, LeMartelot G, Migliavacca E, Praz V, Cousin P, Delorenzi M, Hernandez N; CycliX Consortium.

Genome Res. 2012 Apr;22(4):666-80. doi: 10.1101/gr.130286.111. Epub 2012 Jan 27.

9.

The genome of the fire ant Solenopsis invicta.

Wurm Y, Wang J, Riba-Grognuz O, Corona M, Nygaard S, Hunt BG, Ingram KK, Falquet L, Nipitwattanaphon M, Gotzek D, Dijkstra MB, Oettler J, Comtesse F, Shih CJ, Wu WJ, Yang CC, Thomas J, Beaudoing E, Pradervand S, Flegel V, Cook ED, Fabbretti R, Stockinger H, Long L, Farmerie WG, Oakey J, Boomsma JJ, Pamilo P, Yi SV, Heinze J, Goodisman MA, Farinelli L, Harshman K, Hulo N, Cerutti L, Xenarios I, Shoemaker D, Keller L.

Proc Natl Acad Sci U S A. 2011 Apr 5;108(14):5679-84. doi: 10.1073/pnas.1009690108. Epub 2011 Jan 31.

10.

PDB_REDO: automated re-refinement of X-ray structure models in the PDB.

Joosten RP, Salzemann J, Bloch V, Stockinger H, Berglund AC, Blanchet C, Bongcam-Rudloff E, Combet C, Da Costa AL, Deleage G, Diarena M, Fabbretti R, Fettahi G, Flegel V, Gisel A, Kasam V, Kervinen T, Korpelainen E, Mattila K, Pagni M, Reichstadt M, Breton V, Tickle IJ, Vriend G.

J Appl Crystallogr. 2009 Jun 1;42(Pt 3):376-384. Epub 2009 Apr 3.

11.

A molecular scanner to automate proteomic research and to display proteome images.

Binz PA, Müller M, Walther D, Bienvenut WV, Gras R, Hoogland C, Bouchet G, Gasteiger E, Fabbretti R, Gay S, Palagi P, Wilkins MR, Rouge V, Tonella L, Paesano S, Rossellat G, Karmime A, Bairoch A, Sanchez JC, Appel RD, Hochstrasser DF.

Anal Chem. 1999 Nov 1;71(21):4981-8.

PMID:
10565287
12.

Applying the object paradigm to a centralized database for a cardiology division.

Fabbretti R, Dorsaz PA, Doriot PA, Rutishauser W.

Int J Biomed Comput. 1996 Jul;42(1-2):129-34.

PMID:
8880279

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